Multiple sequence alignment - TraesCS7D01G456500

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G456500 chr7D 100.000 2420 0 0 1 2420 575218946 575216527 0.000000e+00 4470.0
1 TraesCS7D01G456500 chr7D 88.518 958 76 15 687 1630 575149798 575148861 0.000000e+00 1129.0
2 TraesCS7D01G456500 chr7D 84.664 952 79 23 690 1630 575074566 575073671 0.000000e+00 887.0
3 TraesCS7D01G456500 chr7D 85.011 894 97 20 762 1630 574925523 574924642 0.000000e+00 874.0
4 TraesCS7D01G456500 chr7D 84.848 891 89 26 762 1630 574874726 574875592 0.000000e+00 856.0
5 TraesCS7D01G456500 chr7D 81.588 554 62 26 5 523 575075429 575074881 2.880000e-114 422.0
6 TraesCS7D01G456500 chr7D 86.376 367 38 9 209 568 575150160 575149799 8.110000e-105 390.0
7 TraesCS7D01G456500 chr7D 88.716 257 20 5 1636 1884 574924571 574924316 3.020000e-79 305.0
8 TraesCS7D01G456500 chr7D 85.172 290 35 5 1633 1916 574875639 574875926 8.460000e-75 291.0
9 TraesCS7D01G456500 chr7D 86.335 161 9 5 2234 2383 32786429 32786271 1.930000e-36 163.0
10 TraesCS7D01G456500 chr7D 77.707 157 27 3 259 413 223658316 223658466 3.310000e-14 89.8
11 TraesCS7D01G456500 chr7D 86.154 65 7 2 2353 2416 34738107 34738044 4.320000e-08 69.4
12 TraesCS7D01G456500 chr7D 89.091 55 6 0 53 107 63707242 63707296 4.320000e-08 69.4
13 TraesCS7D01G456500 chr7A 86.688 1585 131 31 834 2373 664873747 664872198 0.000000e+00 1685.0
14 TraesCS7D01G456500 chr7A 83.250 1200 146 23 447 1630 664698872 664700032 0.000000e+00 1051.0
15 TraesCS7D01G456500 chr7A 84.086 886 94 21 762 1625 664602987 664603847 0.000000e+00 811.0
16 TraesCS7D01G456500 chr7A 85.695 755 73 13 888 1630 664781179 664780448 0.000000e+00 763.0
17 TraesCS7D01G456500 chr7A 88.848 269 21 5 1629 1889 664700133 664700400 3.000000e-84 322.0
18 TraesCS7D01G456500 chr7A 83.386 319 38 9 1633 1946 664780401 664780093 5.090000e-72 281.0
19 TraesCS7D01G456500 chr7A 87.861 173 11 4 1633 1795 664603921 664604093 6.830000e-46 195.0
20 TraesCS7D01G456500 chr7A 81.959 194 22 7 2238 2420 33042469 33042278 4.170000e-33 152.0
21 TraesCS7D01G456500 chr7A 90.741 54 5 0 54 107 17210299 17210352 3.340000e-09 73.1
22 TraesCS7D01G456500 chr7A 88.462 52 3 1 248 299 519176879 519176831 2.600000e-05 60.2
23 TraesCS7D01G456500 chr7B 87.721 961 82 21 690 1630 636433417 636432473 0.000000e+00 1088.0
24 TraesCS7D01G456500 chr7B 86.878 884 78 20 763 1627 635300857 635301721 0.000000e+00 955.0
25 TraesCS7D01G456500 chr7B 88.502 661 69 7 981 1638 635749094 635748438 0.000000e+00 793.0
26 TraesCS7D01G456500 chr7B 87.846 650 64 5 828 1471 635064936 635065576 0.000000e+00 749.0
27 TraesCS7D01G456500 chr7B 86.817 311 34 4 1628 1931 635748400 635748090 8.290000e-90 340.0
28 TraesCS7D01G456500 chr7B 84.703 353 38 9 1628 1967 635935439 635935090 2.980000e-89 339.0
29 TraesCS7D01G456500 chr7B 89.272 261 22 3 1635 1889 635301785 635302045 3.000000e-84 322.0
30 TraesCS7D01G456500 chr7B 85.714 294 38 4 184 473 635942561 635942268 8.400000e-80 307.0
31 TraesCS7D01G456500 chr7B 84.400 250 16 11 1674 1901 636432391 636432143 8.710000e-55 224.0
32 TraesCS7D01G456500 chr7B 87.113 194 21 3 374 564 636433611 636433419 1.460000e-52 217.0
33 TraesCS7D01G456500 chr7B 82.234 197 9 8 1633 1823 635171323 635171499 1.940000e-31 147.0
34 TraesCS7D01G456500 chr7B 86.555 119 8 5 2307 2420 447694524 447694409 9.080000e-25 124.0
35 TraesCS7D01G456500 chr7B 85.714 119 13 4 2304 2420 187538429 187538545 3.270000e-24 122.0
36 TraesCS7D01G456500 chr7B 86.667 75 9 1 114 188 502671274 502671201 5.550000e-12 82.4
37 TraesCS7D01G456500 chr7B 90.000 60 6 0 54 113 705259906 705259965 7.170000e-11 78.7
38 TraesCS7D01G456500 chr7B 100.000 35 0 0 1596 1630 635935518 635935484 5.580000e-07 65.8
39 TraesCS7D01G456500 chr7B 92.308 39 2 1 166 203 747966045 747966007 1.000000e-03 54.7
40 TraesCS7D01G456500 chr5B 95.455 132 5 1 562 692 96878940 96879071 2.440000e-50 209.0
41 TraesCS7D01G456500 chr5B 94.074 135 7 1 565 698 557532292 557532158 1.130000e-48 204.0
42 TraesCS7D01G456500 chr5B 91.216 148 7 6 546 690 525369110 525368966 1.900000e-46 196.0
43 TraesCS7D01G456500 chr4B 95.385 130 5 1 562 690 68663369 68663498 3.150000e-49 206.0
44 TraesCS7D01G456500 chr4B 95.833 48 2 0 53 100 571608083 571608036 7.170000e-11 78.7
45 TraesCS7D01G456500 chr4A 94.737 133 6 1 559 690 236160632 236160500 3.150000e-49 206.0
46 TraesCS7D01G456500 chr4A 87.302 63 6 2 46 107 684513044 684512983 1.200000e-08 71.3
47 TraesCS7D01G456500 chr5D 94.074 135 7 1 559 692 204877374 204877240 1.130000e-48 204.0
48 TraesCS7D01G456500 chr5D 88.333 60 7 0 54 113 53029515 53029456 3.340000e-09 73.1
49 TraesCS7D01G456500 chr5D 96.875 32 1 0 175 206 54783916 54783947 1.000000e-03 54.7
50 TraesCS7D01G456500 chr5A 93.985 133 8 0 565 697 427320020 427319888 4.080000e-48 202.0
51 TraesCS7D01G456500 chr1D 91.156 147 9 3 547 690 368493830 368493685 1.900000e-46 196.0
52 TraesCS7D01G456500 chr1D 80.723 166 22 6 2226 2383 47844465 47844302 1.180000e-23 121.0
53 TraesCS7D01G456500 chr1D 77.404 208 30 7 2228 2420 453479452 453479247 9.150000e-20 108.0
54 TraesCS7D01G456500 chr1D 97.727 44 1 0 114 157 342451856 342451899 2.580000e-10 76.8
55 TraesCS7D01G456500 chr1D 83.824 68 11 0 2353 2420 218973358 218973425 5.580000e-07 65.8
56 TraesCS7D01G456500 chr2A 82.143 196 23 5 2199 2384 591612234 591612427 8.960000e-35 158.0
57 TraesCS7D01G456500 chr2A 81.152 191 26 7 2238 2420 562646078 562646266 6.970000e-31 145.0
58 TraesCS7D01G456500 chr2A 93.878 49 2 1 52 100 1492795 1492842 3.340000e-09 73.1
59 TraesCS7D01G456500 chr2D 80.193 207 24 10 2228 2420 107930761 107930964 3.240000e-29 139.0
60 TraesCS7D01G456500 chr2D 78.756 193 23 6 2228 2416 425559880 425559702 1.970000e-21 113.0
61 TraesCS7D01G456500 chr2D 80.165 121 16 6 263 383 634116079 634115967 1.540000e-12 84.2
62 TraesCS7D01G456500 chr2D 95.652 46 2 0 55 100 16989174 16989129 9.280000e-10 75.0
63 TraesCS7D01G456500 chr2D 93.182 44 2 1 258 301 315487218 315487260 2.010000e-06 63.9
64 TraesCS7D01G456500 chr2B 81.283 187 17 8 2238 2420 500887599 500887427 4.200000e-28 135.0
65 TraesCS7D01G456500 chr2B 74.752 202 31 14 2226 2420 583787694 583787506 3.340000e-09 73.1
66 TraesCS7D01G456500 chr3D 91.358 81 7 0 125 205 579045031 579045111 7.070000e-21 111.0
67 TraesCS7D01G456500 chr3D 76.712 146 26 7 270 413 480153105 480153244 9.280000e-10 75.0
68 TraesCS7D01G456500 chr3B 86.170 94 11 2 115 207 782807253 782807345 1.530000e-17 100.0
69 TraesCS7D01G456500 chr3B 78.146 151 22 7 267 413 640671854 640671997 4.290000e-13 86.1
70 TraesCS7D01G456500 chr3B 85.526 76 10 1 141 215 498345692 498345767 7.170000e-11 78.7
71 TraesCS7D01G456500 chr3B 92.308 39 3 0 266 304 146554592 146554630 3.360000e-04 56.5
72 TraesCS7D01G456500 chr4D 78.049 164 26 9 2228 2383 29826444 29826283 7.120000e-16 95.3
73 TraesCS7D01G456500 chr1B 91.525 59 2 2 2239 2297 160508899 160508954 7.170000e-11 78.7
74 TraesCS7D01G456500 chrUn 90.741 54 5 0 54 107 89802981 89803034 3.340000e-09 73.1
75 TraesCS7D01G456500 chrUn 87.097 62 7 1 182 242 30384258 30384197 4.320000e-08 69.4
76 TraesCS7D01G456500 chr3A 78.125 96 20 1 114 208 94193917 94193822 2.600000e-05 60.2


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G456500 chr7D 575216527 575218946 2419 True 4470.000000 4470 100.000000 1 2420 1 chr7D.!!$R3 2419
1 TraesCS7D01G456500 chr7D 575148861 575150160 1299 True 759.500000 1129 87.447000 209 1630 2 chr7D.!!$R6 1421
2 TraesCS7D01G456500 chr7D 575073671 575075429 1758 True 654.500000 887 83.126000 5 1630 2 chr7D.!!$R5 1625
3 TraesCS7D01G456500 chr7D 574924316 574925523 1207 True 589.500000 874 86.863500 762 1884 2 chr7D.!!$R4 1122
4 TraesCS7D01G456500 chr7D 574874726 574875926 1200 False 573.500000 856 85.010000 762 1916 2 chr7D.!!$F3 1154
5 TraesCS7D01G456500 chr7A 664872198 664873747 1549 True 1685.000000 1685 86.688000 834 2373 1 chr7A.!!$R3 1539
6 TraesCS7D01G456500 chr7A 664698872 664700400 1528 False 686.500000 1051 86.049000 447 1889 2 chr7A.!!$F3 1442
7 TraesCS7D01G456500 chr7A 664780093 664781179 1086 True 522.000000 763 84.540500 888 1946 2 chr7A.!!$R4 1058
8 TraesCS7D01G456500 chr7A 664602987 664604093 1106 False 503.000000 811 85.973500 762 1795 2 chr7A.!!$F2 1033
9 TraesCS7D01G456500 chr7B 635064936 635065576 640 False 749.000000 749 87.846000 828 1471 1 chr7B.!!$F2 643
10 TraesCS7D01G456500 chr7B 635300857 635302045 1188 False 638.500000 955 88.075000 763 1889 2 chr7B.!!$F5 1126
11 TraesCS7D01G456500 chr7B 635748090 635749094 1004 True 566.500000 793 87.659500 981 1931 2 chr7B.!!$R5 950
12 TraesCS7D01G456500 chr7B 636432143 636433611 1468 True 509.666667 1088 86.411333 374 1901 3 chr7B.!!$R7 1527

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
196 226 0.043334 AGGTGCTCATAGGGGTGAGT 59.957 55.0 5.87 0.0 45.8 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1590 2006 0.246635 CTACCCTCCACCAACACGAG 59.753 60.0 0.0 0.0 0.0 4.18 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 7.111466 GGTGTAGTTGTTTATTATGGGTGGTA 58.889 38.462 0.00 0.00 0.00 3.25
33 34 8.983702 TGTTTATTATGGGTGGTAAGTATTCC 57.016 34.615 0.00 0.00 0.00 3.01
55 56 7.007313 TCCCTAAAAGTATGAAAAATACGCG 57.993 36.000 3.53 3.53 0.00 6.01
58 59 8.126700 CCCTAAAAGTATGAAAAATACGCGAAT 58.873 33.333 15.93 0.00 0.00 3.34
63 64 7.067532 AGTATGAAAAATACGCGAATCAACA 57.932 32.000 15.93 5.03 0.00 3.33
65 66 7.850982 AGTATGAAAAATACGCGAATCAACATC 59.149 33.333 15.93 1.74 0.00 3.06
81 82 4.927267 AACATCTGGTTGGATGGTTAGA 57.073 40.909 8.91 0.00 45.11 2.10
92 93 2.572104 GGATGGTTAGAAGGACAGTGGT 59.428 50.000 0.00 0.00 0.00 4.16
96 97 3.773119 TGGTTAGAAGGACAGTGGTATCC 59.227 47.826 0.00 0.00 34.98 2.59
98 99 1.880941 AGAAGGACAGTGGTATCCCC 58.119 55.000 0.00 0.00 35.38 4.81
107 108 1.680487 TGGTATCCCCAACACACCG 59.320 57.895 0.00 0.00 41.50 4.94
108 109 1.078001 GGTATCCCCAACACACCGG 60.078 63.158 0.00 0.00 0.00 5.28
109 110 1.555477 GGTATCCCCAACACACCGGA 61.555 60.000 9.46 0.00 0.00 5.14
110 111 0.107848 GTATCCCCAACACACCGGAG 60.108 60.000 9.46 1.26 0.00 4.63
111 112 0.545787 TATCCCCAACACACCGGAGT 60.546 55.000 9.46 2.22 0.00 3.85
112 113 1.423794 ATCCCCAACACACCGGAGTT 61.424 55.000 9.46 7.21 0.00 3.01
113 114 1.896660 CCCCAACACACCGGAGTTG 60.897 63.158 22.96 22.96 42.84 3.16
119 120 1.405872 ACACACCGGAGTTGACTACA 58.594 50.000 9.46 0.00 0.00 2.74
123 124 2.696707 ACACCGGAGTTGACTACAAAGA 59.303 45.455 9.46 0.00 37.77 2.52
130 131 4.499357 GGAGTTGACTACAAAGACGTCTGT 60.499 45.833 20.85 16.88 37.77 3.41
156 157 9.599866 TGACGACTTTGTCAATCTTAATATGAT 57.400 29.630 0.00 0.00 45.40 2.45
163 164 8.940768 TTGTCAATCTTAATATGATGTGTCGA 57.059 30.769 0.00 0.00 0.00 4.20
174 175 2.744741 TGATGTGTCGACTGAGTCTCTC 59.255 50.000 17.92 5.59 0.00 3.20
176 177 1.149987 GTGTCGACTGAGTCTCTCGT 58.850 55.000 17.92 3.80 32.35 4.18
182 183 1.399089 GACTGAGTCTCTCGTAGGTGC 59.601 57.143 5.12 0.00 32.35 5.01
190 191 1.883275 CTCTCGTAGGTGCTCATAGGG 59.117 57.143 1.03 0.00 0.00 3.53
196 226 0.043334 AGGTGCTCATAGGGGTGAGT 59.957 55.000 5.87 0.00 45.80 3.41
207 237 1.019278 GGGGTGAGTGTATGTGCGTG 61.019 60.000 0.00 0.00 0.00 5.34
218 248 1.560004 ATGTGCGTGTCTTGAGTGCG 61.560 55.000 0.00 0.00 0.00 5.34
221 251 0.663269 TGCGTGTCTTGAGTGCGTAG 60.663 55.000 0.00 0.00 0.00 3.51
311 341 8.504811 TGGATATTTCAATATGGACTAGGACA 57.495 34.615 0.00 0.00 31.96 4.02
314 344 9.778741 GATATTTCAATATGGACTAGGACAACA 57.221 33.333 0.00 0.00 31.96 3.33
318 348 7.669089 TCAATATGGACTAGGACAACATACA 57.331 36.000 0.00 0.00 0.00 2.29
322 352 4.901868 TGGACTAGGACAACATACAAACC 58.098 43.478 0.00 0.00 0.00 3.27
325 355 4.817517 ACTAGGACAACATACAAACCGAG 58.182 43.478 0.00 0.00 0.00 4.63
327 357 3.660865 AGGACAACATACAAACCGAGAC 58.339 45.455 0.00 0.00 0.00 3.36
341 371 4.451629 ACCGAGACGAGTGAATAAACAT 57.548 40.909 0.00 0.00 0.00 2.71
421 462 5.167303 AGAAGGAGGGAGTACAATGTTTC 57.833 43.478 0.00 0.00 0.00 2.78
422 463 3.611766 AGGAGGGAGTACAATGTTTCG 57.388 47.619 0.00 0.00 0.00 3.46
457 498 3.118445 CCAACAATCCCCAACTGTTTGTT 60.118 43.478 0.00 0.00 40.18 2.83
529 714 7.116233 GTCAACTTTAGCCAATGTAACCATTTG 59.884 37.037 0.00 0.00 39.28 2.32
557 871 4.918588 TCTTATTCCCCAAGTTTGTCTCC 58.081 43.478 0.00 0.00 0.00 3.71
572 886 6.272558 AGTTTGTCTCCATTTAGTACTCCCTT 59.727 38.462 0.00 0.00 0.00 3.95
576 890 5.021458 TCTCCATTTAGTACTCCCTTCGTT 58.979 41.667 0.00 0.00 0.00 3.85
578 892 4.110482 CCATTTAGTACTCCCTTCGTTCG 58.890 47.826 0.00 0.00 0.00 3.95
579 893 3.855689 TTTAGTACTCCCTTCGTTCGG 57.144 47.619 0.00 0.00 0.00 4.30
584 898 4.019174 AGTACTCCCTTCGTTCGGAAATA 58.981 43.478 0.00 0.00 33.34 1.40
591 905 3.991773 CCTTCGTTCGGAAATACTTGTCA 59.008 43.478 0.00 0.00 33.34 3.58
593 907 5.220416 CCTTCGTTCGGAAATACTTGTCATC 60.220 44.000 0.00 0.00 33.34 2.92
594 908 4.811908 TCGTTCGGAAATACTTGTCATCA 58.188 39.130 0.00 0.00 0.00 3.07
596 910 5.697178 TCGTTCGGAAATACTTGTCATCAAA 59.303 36.000 0.00 0.00 32.87 2.69
597 911 6.203145 TCGTTCGGAAATACTTGTCATCAAAA 59.797 34.615 0.00 0.00 32.87 2.44
600 914 7.680442 TCGGAAATACTTGTCATCAAAATGA 57.320 32.000 0.00 0.00 39.63 2.57
601 915 8.105097 TCGGAAATACTTGTCATCAAAATGAA 57.895 30.769 0.00 0.00 43.42 2.57
669 984 8.096414 CCCTTTTTATCCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
679 994 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
684 999 3.256383 TGACAAGTATTTTCGGACGGAGA 59.744 43.478 0.00 0.00 0.00 3.71
806 1125 2.083774 TGTAAATGCCAGCCGAGAAAG 58.916 47.619 0.00 0.00 0.00 2.62
808 1127 1.909700 AAATGCCAGCCGAGAAAGAA 58.090 45.000 0.00 0.00 0.00 2.52
811 1130 1.686355 TGCCAGCCGAGAAAGAAAAA 58.314 45.000 0.00 0.00 0.00 1.94
812 1131 2.238521 TGCCAGCCGAGAAAGAAAAAT 58.761 42.857 0.00 0.00 0.00 1.82
814 1133 2.672195 GCCAGCCGAGAAAGAAAAATGG 60.672 50.000 0.00 0.00 0.00 3.16
815 1134 2.599659 CAGCCGAGAAAGAAAAATGGC 58.400 47.619 0.00 0.00 41.27 4.40
816 1135 2.030007 CAGCCGAGAAAGAAAAATGGCA 60.030 45.455 2.94 0.00 43.35 4.92
885 1214 2.821366 CACCATGGCCGTCTCAGC 60.821 66.667 13.04 0.00 0.00 4.26
905 1239 0.443869 CCAATCGCCTTGTGTTCTCG 59.556 55.000 0.00 0.00 32.61 4.04
908 1242 1.016130 ATCGCCTTGTGTTCTCGCAG 61.016 55.000 0.00 0.00 35.43 5.18
915 1256 0.109086 TGTGTTCTCGCAGCTCTAGC 60.109 55.000 0.00 0.00 42.49 3.42
926 1267 1.644913 GCTCTAGCGTCGTCTCTCC 59.355 63.158 0.00 0.00 0.00 3.71
973 1335 1.403514 CCACTTCCAAGAGTCTCGAGC 60.404 57.143 7.81 2.90 0.00 5.03
979 1341 1.458398 CAAGAGTCTCGAGCTCTCCA 58.542 55.000 27.97 2.90 41.96 3.86
1100 1465 4.452733 CACGGTCGGGAAGGCCTC 62.453 72.222 5.23 0.00 44.20 4.70
1103 1468 3.471806 GGTCGGGAAGGCCTCCTC 61.472 72.222 5.23 0.00 44.68 3.71
1104 1469 3.471806 GTCGGGAAGGCCTCCTCC 61.472 72.222 14.39 14.39 44.68 4.30
1105 1470 4.005978 TCGGGAAGGCCTCCTCCA 62.006 66.667 22.49 2.90 44.68 3.86
1106 1471 3.787001 CGGGAAGGCCTCCTCCAC 61.787 72.222 22.49 12.24 44.68 4.02
1107 1472 3.787001 GGGAAGGCCTCCTCCACG 61.787 72.222 22.49 0.00 44.68 4.94
1108 1473 3.787001 GGAAGGCCTCCTCCACGG 61.787 72.222 17.35 0.00 41.61 4.94
1109 1474 4.475135 GAAGGCCTCCTCCACGGC 62.475 72.222 5.23 0.00 45.55 5.68
1115 1480 4.821589 CTCCTCCACGGCCGCTTC 62.822 72.222 28.58 0.00 0.00 3.86
1125 1514 4.415332 GCCGCTTCGTCGTCCTCA 62.415 66.667 0.00 0.00 0.00 3.86
1140 1529 1.517257 CTCATCGTTCTTCGGCGCT 60.517 57.895 7.64 0.00 40.32 5.92
1368 1757 2.043450 CTCCTCCTCGGCCTCACT 60.043 66.667 0.00 0.00 0.00 3.41
1370 1759 3.465403 CCTCCTCGGCCTCACTGG 61.465 72.222 0.00 0.00 39.35 4.00
1426 1824 1.727880 CGCTCTACTACTAGCCTAGCG 59.272 57.143 0.00 10.40 44.22 4.26
1454 1852 1.601419 CCGTTTCACCCTCCTCGCTA 61.601 60.000 0.00 0.00 0.00 4.26
1506 1909 1.482748 CCCCTGGCAAAGGCAAATGT 61.483 55.000 0.00 0.00 45.89 2.71
1510 1921 0.829333 TGGCAAAGGCAAATGTGTGT 59.171 45.000 0.00 0.00 43.71 3.72
1511 1922 1.219646 GGCAAAGGCAAATGTGTGTG 58.780 50.000 0.00 0.00 43.71 3.82
1529 1945 0.401356 TGAACCAGCAGAGCCAATCA 59.599 50.000 0.00 0.00 0.00 2.57
1533 1949 0.395311 CCAGCAGAGCCAATCACCAT 60.395 55.000 0.00 0.00 0.00 3.55
1535 1951 0.106819 AGCAGAGCCAATCACCATCC 60.107 55.000 0.00 0.00 0.00 3.51
1556 1972 0.855349 CTGCGTTCTGACCGATATGC 59.145 55.000 0.00 0.00 0.00 3.14
1590 2006 8.295175 TGGATGTTGTACATACGGAAGTCTCC 62.295 46.154 0.00 0.00 42.40 3.71
1631 2058 3.649986 GGGATTCCGCCGCATTCG 61.650 66.667 0.00 0.00 0.00 3.34
1691 2228 3.636300 AGATCTAGTTCTGGTAGCTGCAG 59.364 47.826 10.11 10.11 0.00 4.41
1759 2298 0.726827 AACACATCATGTAAGCCGCG 59.273 50.000 0.00 0.00 42.31 6.46
1829 2384 5.055265 TCCAAGATCTGGTGGTGTAAAAA 57.945 39.130 12.27 0.00 46.51 1.94
1836 2391 3.957497 TCTGGTGGTGTAAAAAGCAATGT 59.043 39.130 0.00 0.00 0.00 2.71
1840 2395 5.219633 GGTGGTGTAAAAAGCAATGTACTG 58.780 41.667 0.00 0.00 0.00 2.74
1856 2419 0.469070 ACTGCCATGATCTCCAGCTC 59.531 55.000 0.00 0.00 0.00 4.09
1890 2458 1.991070 AGGCAGCCTGGCATAGAATAT 59.009 47.619 22.65 0.00 46.46 1.28
1897 2465 3.944015 GCCTGGCATAGAATATCATGGTC 59.056 47.826 15.17 0.00 0.00 4.02
1905 2473 7.763528 GGCATAGAATATCATGGTCTACTTCTG 59.236 40.741 0.00 0.00 0.00 3.02
1938 2508 7.510343 ACCAGTTACTAAACTACTTACTTGGGA 59.490 37.037 0.00 0.00 44.28 4.37
1953 2523 1.548081 TGGGACTGTGGATGCATTTG 58.452 50.000 0.00 0.00 0.00 2.32
1958 2528 4.379652 GGACTGTGGATGCATTTGTTTTT 58.620 39.130 0.00 0.00 0.00 1.94
2001 2571 3.452264 TGCATATACTTCAGAGGCACTGT 59.548 43.478 11.71 0.00 45.86 3.55
2055 2625 1.289160 TGGCCAGGTTCAGAATAGCT 58.711 50.000 0.00 0.00 0.00 3.32
2056 2626 1.065199 TGGCCAGGTTCAGAATAGCTG 60.065 52.381 0.00 0.00 46.31 4.24
2103 2674 4.994852 ACAGTGCGTGTGTATAGATTTTGT 59.005 37.500 0.00 0.00 38.28 2.83
2104 2675 5.107104 ACAGTGCGTGTGTATAGATTTTGTG 60.107 40.000 0.00 0.00 38.28 3.33
2111 2682 7.581476 CGTGTGTATAGATTTTGTGGAACTTT 58.419 34.615 0.00 0.00 38.04 2.66
2169 2741 0.469917 ACCCGGACTTGGCATATCTG 59.530 55.000 0.73 0.00 0.00 2.90
2221 2793 3.309954 GGCTGGTGACGTCTCAAATAATC 59.690 47.826 17.92 0.00 0.00 1.75
2222 2794 3.932710 GCTGGTGACGTCTCAAATAATCA 59.067 43.478 17.92 0.00 0.00 2.57
2235 2807 8.636213 GTCTCAAATAATCAATTCCACATCCAT 58.364 33.333 0.00 0.00 0.00 3.41
2249 2821 5.598417 TCCACATCCATATACCTCATATCCG 59.402 44.000 0.00 0.00 0.00 4.18
2261 2833 4.835615 ACCTCATATCCGGCATCCTATATC 59.164 45.833 0.00 0.00 0.00 1.63
2271 2843 4.281182 CGGCATCCTATATCCATACTACCC 59.719 50.000 0.00 0.00 0.00 3.69
2278 2850 6.908593 TCCTATATCCATACTACCCATGCAAT 59.091 38.462 0.00 0.00 0.00 3.56
2279 2851 6.994496 CCTATATCCATACTACCCATGCAATG 59.006 42.308 0.00 0.00 46.21 2.82
2290 2862 4.343231 ACCCATGCAATGTGATGAACTAA 58.657 39.130 0.00 0.00 44.81 2.24
2301 2873 5.588240 TGTGATGAACTAATCTACGCGAAT 58.412 37.500 15.93 0.00 0.00 3.34
2303 2875 5.685954 GTGATGAACTAATCTACGCGAATGA 59.314 40.000 15.93 8.11 0.00 2.57
2348 2920 5.219633 GGACAACGAAATGCACATAAAACT 58.780 37.500 0.00 0.00 0.00 2.66
2349 2921 5.689961 GGACAACGAAATGCACATAAAACTT 59.310 36.000 0.00 0.00 0.00 2.66
2351 2923 7.380065 GGACAACGAAATGCACATAAAACTTAA 59.620 33.333 0.00 0.00 0.00 1.85
2353 2925 9.900710 ACAACGAAATGCACATAAAACTTAATA 57.099 25.926 0.00 0.00 0.00 0.98
2373 2945 9.123902 CTTAATACATCATCCAAAAGATCACCA 57.876 33.333 0.00 0.00 30.59 4.17
2374 2946 6.949352 ATACATCATCCAAAAGATCACCAC 57.051 37.500 0.00 0.00 30.59 4.16
2375 2947 4.665451 ACATCATCCAAAAGATCACCACA 58.335 39.130 0.00 0.00 30.59 4.17
2376 2948 4.703575 ACATCATCCAAAAGATCACCACAG 59.296 41.667 0.00 0.00 30.59 3.66
2377 2949 4.371624 TCATCCAAAAGATCACCACAGT 57.628 40.909 0.00 0.00 30.59 3.55
2378 2950 4.728772 TCATCCAAAAGATCACCACAGTT 58.271 39.130 0.00 0.00 30.59 3.16
2379 2951 4.761739 TCATCCAAAAGATCACCACAGTTC 59.238 41.667 0.00 0.00 30.59 3.01
2380 2952 4.163441 TCCAAAAGATCACCACAGTTCA 57.837 40.909 0.00 0.00 0.00 3.18
2381 2953 4.728772 TCCAAAAGATCACCACAGTTCAT 58.271 39.130 0.00 0.00 0.00 2.57
2382 2954 4.761739 TCCAAAAGATCACCACAGTTCATC 59.238 41.667 0.00 0.00 0.00 2.92
2383 2955 4.520111 CCAAAAGATCACCACAGTTCATCA 59.480 41.667 0.00 0.00 0.00 3.07
2384 2956 5.184479 CCAAAAGATCACCACAGTTCATCAT 59.816 40.000 0.00 0.00 0.00 2.45
2385 2957 6.320171 CAAAAGATCACCACAGTTCATCATC 58.680 40.000 0.00 0.00 0.00 2.92
2386 2958 3.790091 AGATCACCACAGTTCATCATCG 58.210 45.455 0.00 0.00 0.00 3.84
2387 2959 2.385013 TCACCACAGTTCATCATCGG 57.615 50.000 0.00 0.00 0.00 4.18
2388 2960 1.066215 TCACCACAGTTCATCATCGGG 60.066 52.381 0.00 0.00 0.00 5.14
2389 2961 1.066215 CACCACAGTTCATCATCGGGA 60.066 52.381 0.00 0.00 0.00 5.14
2390 2962 1.628340 ACCACAGTTCATCATCGGGAA 59.372 47.619 0.00 0.00 0.00 3.97
2391 2963 2.283298 CCACAGTTCATCATCGGGAAG 58.717 52.381 0.00 0.00 0.00 3.46
2392 2964 2.355108 CCACAGTTCATCATCGGGAAGT 60.355 50.000 0.00 0.00 0.00 3.01
2393 2965 3.338249 CACAGTTCATCATCGGGAAGTT 58.662 45.455 0.00 0.00 0.00 2.66
2394 2966 3.753272 CACAGTTCATCATCGGGAAGTTT 59.247 43.478 0.00 0.00 0.00 2.66
2395 2967 4.216257 CACAGTTCATCATCGGGAAGTTTT 59.784 41.667 0.00 0.00 0.00 2.43
2396 2968 4.827284 ACAGTTCATCATCGGGAAGTTTTT 59.173 37.500 0.00 0.00 0.00 1.94
2397 2969 6.001460 ACAGTTCATCATCGGGAAGTTTTTA 58.999 36.000 0.00 0.00 0.00 1.52
2398 2970 6.488683 ACAGTTCATCATCGGGAAGTTTTTAA 59.511 34.615 0.00 0.00 0.00 1.52
2399 2971 6.801862 CAGTTCATCATCGGGAAGTTTTTAAC 59.198 38.462 0.00 0.00 0.00 2.01
2400 2972 6.715264 AGTTCATCATCGGGAAGTTTTTAACT 59.285 34.615 0.00 0.00 45.46 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.947566 ACCACCCATAATAAACAACTACACC 59.052 40.000 0.00 0.00 0.00 4.16
1 2 8.564509 TTACCACCCATAATAAACAACTACAC 57.435 34.615 0.00 0.00 0.00 2.90
2 3 8.384718 ACTTACCACCCATAATAAACAACTACA 58.615 33.333 0.00 0.00 0.00 2.74
3 4 8.797350 ACTTACCACCCATAATAAACAACTAC 57.203 34.615 0.00 0.00 0.00 2.73
13 14 7.957929 TTAGGGAATACTTACCACCCATAAT 57.042 36.000 0.00 0.00 42.62 1.28
33 34 9.155053 GATTCGCGTATTTTTCATACTTTTAGG 57.845 33.333 5.77 0.00 0.00 2.69
63 64 4.080299 GTCCTTCTAACCATCCAACCAGAT 60.080 45.833 0.00 0.00 0.00 2.90
65 66 3.009033 TGTCCTTCTAACCATCCAACCAG 59.991 47.826 0.00 0.00 0.00 4.00
72 73 3.983044 ACCACTGTCCTTCTAACCATC 57.017 47.619 0.00 0.00 0.00 3.51
74 75 3.773119 GGATACCACTGTCCTTCTAACCA 59.227 47.826 0.00 0.00 0.00 3.67
75 76 4.403585 GGATACCACTGTCCTTCTAACC 57.596 50.000 0.00 0.00 0.00 2.85
92 93 0.545787 ACTCCGGTGTGTTGGGGATA 60.546 55.000 8.68 0.00 0.00 2.59
96 97 1.147376 TCAACTCCGGTGTGTTGGG 59.853 57.895 25.15 10.30 43.06 4.12
98 99 2.132762 GTAGTCAACTCCGGTGTGTTG 58.867 52.381 22.18 22.18 43.80 3.33
100 101 1.405872 TGTAGTCAACTCCGGTGTGT 58.594 50.000 10.44 0.55 0.00 3.72
101 102 2.519377 TTGTAGTCAACTCCGGTGTG 57.481 50.000 10.44 4.96 0.00 3.82
102 103 2.696707 TCTTTGTAGTCAACTCCGGTGT 59.303 45.455 2.61 2.61 32.93 4.16
106 107 2.978489 GACGTCTTTGTAGTCAACTCCG 59.022 50.000 8.70 0.00 35.19 4.63
107 108 3.982058 CAGACGTCTTTGTAGTCAACTCC 59.018 47.826 17.26 0.00 37.36 3.85
108 109 4.441415 CACAGACGTCTTTGTAGTCAACTC 59.559 45.833 21.03 0.00 37.36 3.01
109 110 4.097437 TCACAGACGTCTTTGTAGTCAACT 59.903 41.667 26.33 0.00 37.36 3.16
110 111 4.206609 GTCACAGACGTCTTTGTAGTCAAC 59.793 45.833 26.33 15.02 37.36 3.18
111 112 4.357142 GTCACAGACGTCTTTGTAGTCAA 58.643 43.478 26.33 7.83 37.36 3.18
112 113 3.961182 GTCACAGACGTCTTTGTAGTCA 58.039 45.455 26.33 8.49 37.36 3.41
130 131 8.996024 TCATATTAAGATTGACAAAGTCGTCA 57.004 30.769 0.00 0.00 44.05 4.35
151 152 4.518249 AGAGACTCAGTCGACACATCATA 58.482 43.478 19.50 0.00 37.67 2.15
156 157 1.149148 CGAGAGACTCAGTCGACACA 58.851 55.000 19.50 1.96 37.67 3.72
163 164 1.003812 AGCACCTACGAGAGACTCAGT 59.996 52.381 5.02 7.01 0.00 3.41
174 175 0.389391 CACCCCTATGAGCACCTACG 59.611 60.000 0.00 0.00 0.00 3.51
176 177 2.088104 CTCACCCCTATGAGCACCTA 57.912 55.000 0.00 0.00 39.77 3.08
190 191 1.068474 GACACGCACATACACTCACC 58.932 55.000 0.00 0.00 0.00 4.02
196 226 2.403259 CACTCAAGACACGCACATACA 58.597 47.619 0.00 0.00 0.00 2.29
207 237 5.692613 ATATAGACCTACGCACTCAAGAC 57.307 43.478 0.00 0.00 0.00 3.01
311 341 3.005050 TCACTCGTCTCGGTTTGTATGTT 59.995 43.478 0.00 0.00 0.00 2.71
314 344 3.928727 TTCACTCGTCTCGGTTTGTAT 57.071 42.857 0.00 0.00 0.00 2.29
318 348 4.624015 TGTTTATTCACTCGTCTCGGTTT 58.376 39.130 0.00 0.00 0.00 3.27
322 352 8.610855 TTTAGTATGTTTATTCACTCGTCTCG 57.389 34.615 0.00 0.00 0.00 4.04
399 438 4.322801 CGAAACATTGTACTCCCTCCTTCT 60.323 45.833 0.00 0.00 0.00 2.85
421 462 4.923281 GGATTGTTGGTTCCTTCATTTTCG 59.077 41.667 0.00 0.00 0.00 3.46
422 463 5.237815 GGGATTGTTGGTTCCTTCATTTTC 58.762 41.667 0.00 0.00 32.34 2.29
457 498 7.883391 TGTCTTGTTCCAACTTAAAACCATA 57.117 32.000 0.00 0.00 0.00 2.74
529 714 5.221441 ACAAACTTGGGGAATAAGAAACTGC 60.221 40.000 0.00 0.00 0.00 4.40
557 871 4.110482 CCGAACGAAGGGAGTACTAAATG 58.890 47.826 0.00 0.00 0.00 2.32
572 886 4.811908 TGATGACAAGTATTTCCGAACGA 58.188 39.130 0.00 0.00 0.00 3.85
576 890 7.680442 TCATTTTGATGACAAGTATTTCCGA 57.320 32.000 0.00 0.00 37.32 4.55
584 898 9.699410 TCCCTATTATTCATTTTGATGACAAGT 57.301 29.630 0.00 0.00 37.32 3.16
652 967 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
653 968 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
656 971 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
657 972 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
660 975 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
662 977 3.256383 TCTCCGTCCGAAAATACTTGTCA 59.744 43.478 0.00 0.00 0.00 3.58
663 978 3.841643 TCTCCGTCCGAAAATACTTGTC 58.158 45.455 0.00 0.00 0.00 3.18
665 980 4.106029 TCTCTCCGTCCGAAAATACTTG 57.894 45.455 0.00 0.00 0.00 3.16
669 984 5.128205 TCATACTCTCTCCGTCCGAAAATA 58.872 41.667 0.00 0.00 0.00 1.40
675 990 2.422479 TGTTTCATACTCTCTCCGTCCG 59.578 50.000 0.00 0.00 0.00 4.79
679 994 2.482142 GCCCTGTTTCATACTCTCTCCG 60.482 54.545 0.00 0.00 0.00 4.63
684 999 3.806949 TTTGGCCCTGTTTCATACTCT 57.193 42.857 0.00 0.00 0.00 3.24
759 1075 3.904800 TTGCTCGGAATGGAATGTAGA 57.095 42.857 0.00 0.00 0.00 2.59
797 1116 2.723124 TGCCATTTTTCTTTCTCGGC 57.277 45.000 0.00 0.00 38.56 5.54
806 1125 3.006217 ACAGCTCCTCTTTGCCATTTTTC 59.994 43.478 0.00 0.00 0.00 2.29
808 1127 2.298163 CACAGCTCCTCTTTGCCATTTT 59.702 45.455 0.00 0.00 0.00 1.82
811 1130 0.964358 GCACAGCTCCTCTTTGCCAT 60.964 55.000 0.00 0.00 41.44 4.40
812 1131 1.601759 GCACAGCTCCTCTTTGCCA 60.602 57.895 0.00 0.00 41.44 4.92
814 1133 0.450983 GATGCACAGCTCCTCTTTGC 59.549 55.000 0.00 0.00 46.07 3.68
815 1134 0.725686 CGATGCACAGCTCCTCTTTG 59.274 55.000 0.00 0.00 0.00 2.77
816 1135 1.023513 GCGATGCACAGCTCCTCTTT 61.024 55.000 7.87 0.00 0.00 2.52
839 1161 1.403687 ATAACGGGAGAGCTGGAGGC 61.404 60.000 0.00 0.00 42.19 4.70
886 1215 0.443869 CGAGAACACAAGGCGATTGG 59.556 55.000 5.41 0.00 43.68 3.16
890 1219 1.664649 CTGCGAGAACACAAGGCGA 60.665 57.895 0.00 0.00 0.00 5.54
905 1239 1.298041 GAGACGACGCTAGAGCTGC 60.298 63.158 0.00 0.00 39.32 5.25
908 1242 1.644913 GGAGAGACGACGCTAGAGC 59.355 63.158 0.00 0.00 37.78 4.09
915 1256 0.109226 GTTCTTGGGGAGAGACGACG 60.109 60.000 0.00 0.00 35.37 5.12
922 1263 3.327404 GGCGGGTTCTTGGGGAGA 61.327 66.667 0.00 0.00 0.00 3.71
952 1308 0.603569 TCGAGACTCTTGGAAGTGGC 59.396 55.000 0.03 0.00 0.00 5.01
955 1311 1.816224 GAGCTCGAGACTCTTGGAAGT 59.184 52.381 18.75 0.00 0.00 3.01
956 1312 2.091541 AGAGCTCGAGACTCTTGGAAG 58.908 52.381 24.62 0.00 41.79 3.46
957 1313 2.088423 GAGAGCTCGAGACTCTTGGAA 58.912 52.381 28.27 0.00 44.50 3.53
958 1314 1.680555 GGAGAGCTCGAGACTCTTGGA 60.681 57.143 28.27 0.00 44.50 3.53
960 1316 1.458398 TGGAGAGCTCGAGACTCTTG 58.542 55.000 28.27 1.61 44.50 3.02
973 1335 0.248825 CTGCTTCGGTCGATGGAGAG 60.249 60.000 17.96 3.87 39.08 3.20
1108 1473 3.701604 ATGAGGACGACGAAGCGGC 62.702 63.158 0.00 0.00 38.96 6.53
1109 1474 1.586564 GATGAGGACGACGAAGCGG 60.587 63.158 0.00 0.00 35.12 5.52
1110 1475 1.934956 CGATGAGGACGACGAAGCG 60.935 63.158 0.00 0.00 37.29 4.68
1111 1476 0.456312 AACGATGAGGACGACGAAGC 60.456 55.000 0.00 0.00 34.70 3.86
1112 1477 1.130749 AGAACGATGAGGACGACGAAG 59.869 52.381 0.00 0.00 34.70 3.79
1113 1478 1.162698 AGAACGATGAGGACGACGAA 58.837 50.000 0.00 0.00 34.70 3.85
1114 1479 1.129998 GAAGAACGATGAGGACGACGA 59.870 52.381 0.00 0.00 34.70 4.20
1115 1480 1.536149 GAAGAACGATGAGGACGACG 58.464 55.000 0.00 0.00 34.70 5.12
1116 1481 1.536149 CGAAGAACGATGAGGACGAC 58.464 55.000 0.00 0.00 45.77 4.34
1119 1484 1.140407 CGCCGAAGAACGATGAGGAC 61.140 60.000 0.00 0.00 45.77 3.85
1125 1514 2.579787 CGAGCGCCGAAGAACGAT 60.580 61.111 2.29 0.00 45.77 3.73
1426 1824 1.241990 GGGTGAAACGGGGAAGAAGC 61.242 60.000 0.00 0.00 38.12 3.86
1506 1909 1.227943 GGCTCTGCTGGTTCACACA 60.228 57.895 0.00 0.00 0.00 3.72
1510 1921 0.401356 TGATTGGCTCTGCTGGTTCA 59.599 50.000 0.00 0.00 0.00 3.18
1511 1922 0.807496 GTGATTGGCTCTGCTGGTTC 59.193 55.000 0.00 0.00 0.00 3.62
1529 1945 2.434884 CAGAACGCAGCGGATGGT 60.435 61.111 21.15 0.00 0.00 3.55
1533 1949 4.717629 CGGTCAGAACGCAGCGGA 62.718 66.667 21.15 3.22 0.00 5.54
1535 1951 0.595053 ATATCGGTCAGAACGCAGCG 60.595 55.000 14.82 14.82 34.83 5.18
1556 1972 2.191786 TACAACATCCACGCAGGGGG 62.192 60.000 0.00 0.00 38.24 5.40
1590 2006 0.246635 CTACCCTCCACCAACACGAG 59.753 60.000 0.00 0.00 0.00 4.18
1594 2010 1.189524 CGTCCTACCCTCCACCAACA 61.190 60.000 0.00 0.00 0.00 3.33
1631 2058 6.512297 AGAACACTCAGAAGAAGAAGAAGAC 58.488 40.000 0.00 0.00 0.00 3.01
1691 2228 3.260632 AGAAGAGGAAGAAGAAGCTCCAC 59.739 47.826 0.00 0.00 0.00 4.02
1759 2298 1.747355 CATTTCACTCACATGAGGCCC 59.253 52.381 13.33 0.00 46.13 5.80
1829 2384 3.474600 GAGATCATGGCAGTACATTGCT 58.525 45.455 7.01 0.00 43.57 3.91
1836 2391 1.690893 GAGCTGGAGATCATGGCAGTA 59.309 52.381 0.00 0.00 0.00 2.74
1840 2395 1.960250 GCGAGCTGGAGATCATGGC 60.960 63.158 0.00 0.00 0.00 4.40
1856 2419 1.400242 GCTGCCTGAACTGTTAAAGCG 60.400 52.381 0.00 0.00 0.00 4.68
1890 2458 5.337571 GGTCAATCACAGAAGTAGACCATGA 60.338 44.000 0.00 0.00 42.65 3.07
1897 2465 6.692486 AGTAACTGGTCAATCACAGAAGTAG 58.308 40.000 0.00 0.00 38.09 2.57
1905 2473 8.828688 AAGTAGTTTAGTAACTGGTCAATCAC 57.171 34.615 0.00 0.00 44.22 3.06
1958 2528 4.024387 GCATCACAAACCTAGACGTTCAAA 60.024 41.667 0.00 0.00 0.00 2.69
1972 2542 5.528690 GCCTCTGAAGTATATGCATCACAAA 59.471 40.000 0.19 0.00 0.00 2.83
2001 2571 1.134128 TCTGGCAAGCAGTTGTGAAGA 60.134 47.619 0.00 0.00 35.92 2.87
2031 2601 4.644685 GCTATTCTGAACCTGGCCATAAAA 59.355 41.667 5.51 0.00 0.00 1.52
2055 2625 1.134367 GTATGGCTCTACGTGCAGTCA 59.866 52.381 0.00 1.10 0.00 3.41
2056 2626 1.134367 TGTATGGCTCTACGTGCAGTC 59.866 52.381 0.00 0.00 0.00 3.51
2063 2633 4.788690 CACTGTATCTGTATGGCTCTACG 58.211 47.826 0.00 0.00 0.00 3.51
2064 2634 4.551388 GCACTGTATCTGTATGGCTCTAC 58.449 47.826 0.00 0.00 0.00 2.59
2141 2713 0.462047 CAAGTCCGGGTGTAGATGCC 60.462 60.000 0.00 0.00 0.00 4.40
2142 2714 0.462047 CCAAGTCCGGGTGTAGATGC 60.462 60.000 0.00 0.00 0.00 3.91
2151 2723 0.886490 GCAGATATGCCAAGTCCGGG 60.886 60.000 0.00 0.00 0.00 5.73
2197 2769 0.531974 TTTGAGACGTCACCAGCCAC 60.532 55.000 19.50 0.00 30.10 5.01
2200 2772 3.932710 TGATTATTTGAGACGTCACCAGC 59.067 43.478 19.50 2.01 30.10 4.85
2206 2778 7.072177 TGTGGAATTGATTATTTGAGACGTC 57.928 36.000 7.70 7.70 0.00 4.34
2221 2793 9.334947 GATATGAGGTATATGGATGTGGAATTG 57.665 37.037 0.00 0.00 32.09 2.32
2222 2794 8.497745 GGATATGAGGTATATGGATGTGGAATT 58.502 37.037 0.00 0.00 32.09 2.17
2235 2807 4.265856 AGGATGCCGGATATGAGGTATA 57.734 45.455 5.05 0.00 32.98 1.47
2239 2811 4.221703 GGATATAGGATGCCGGATATGAGG 59.778 50.000 5.05 0.00 0.00 3.86
2240 2812 4.835056 TGGATATAGGATGCCGGATATGAG 59.165 45.833 5.05 0.00 0.00 2.90
2249 2821 5.216622 TGGGTAGTATGGATATAGGATGCC 58.783 45.833 0.00 0.00 0.00 4.40
2261 2833 3.819368 TCACATTGCATGGGTAGTATGG 58.181 45.455 0.00 0.00 34.56 2.74
2271 2843 7.067728 CGTAGATTAGTTCATCACATTGCATG 58.932 38.462 0.00 0.00 0.00 4.06
2278 2850 4.625972 TCGCGTAGATTAGTTCATCACA 57.374 40.909 5.77 0.00 0.00 3.58
2279 2851 5.685954 TCATTCGCGTAGATTAGTTCATCAC 59.314 40.000 5.77 0.00 0.00 3.06
2290 2862 6.291849 CGATTTCTTTCTTCATTCGCGTAGAT 60.292 38.462 5.77 0.00 0.00 1.98
2301 2873 5.460646 GTTTGATGCCGATTTCTTTCTTCA 58.539 37.500 0.00 0.00 0.00 3.02
2303 2875 4.475944 CGTTTGATGCCGATTTCTTTCTT 58.524 39.130 0.00 0.00 0.00 2.52
2348 2920 8.902806 GTGGTGATCTTTTGGATGATGTATTAA 58.097 33.333 0.00 0.00 34.33 1.40
2349 2921 8.052141 TGTGGTGATCTTTTGGATGATGTATTA 58.948 33.333 0.00 0.00 34.33 0.98
2351 2923 6.425735 TGTGGTGATCTTTTGGATGATGTAT 58.574 36.000 0.00 0.00 34.33 2.29
2353 2925 4.665451 TGTGGTGATCTTTTGGATGATGT 58.335 39.130 0.00 0.00 34.33 3.06
2373 2945 3.703001 AACTTCCCGATGATGAACTGT 57.297 42.857 0.00 0.00 0.00 3.55
2374 2946 5.376854 AAAAACTTCCCGATGATGAACTG 57.623 39.130 0.00 0.00 0.00 3.16
2375 2947 6.715264 AGTTAAAAACTTCCCGATGATGAACT 59.285 34.615 0.00 0.00 39.04 3.01
2376 2948 6.909909 AGTTAAAAACTTCCCGATGATGAAC 58.090 36.000 0.00 0.00 39.04 3.18


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.